18S rDNA sequencing data of benthic polychaetes from the Eastern Arabian Sea.

The limited DNA sequence data of the polychaetes species are available from the Eastern Arabian Sea. We have sequenced 18S rDNA gene from 54 polychaetes species and 37 species identified up to the species level. The DNA bar-coding data provides for molecular identification of benthic polychaetes that will provide imminent into drivers of species diversity in the Eastern Arabian Sea. The 18S rDNA sequence data set is made publicly available to enable critical or extended analyzes of DNA bar-coding.

Specifications table

Value of the data

These data are the first generated using 18S rRNA genes of polychaetes in west coast of India.

This project presents the diversity of benthic polychaetes communities by using 18S rRNA gene sequencing.

This data provides other researchers to extend the molecular identification (DNA barcoding).

Data

The molecular taxonomy is refreshing traditional taxonomy and helps to increase the taxonomic crisis, alternative and complementary approaches, particularly successful in the identification and delimitation of new species from various groups [1]. Recently, the increased identification of abundance and importance of cryptic species, those are morphologically identical but genetically different [2]. Moreover, the molecular identification has been reformed the exploration of biodiversity for which traditional taxonomy is difficult [3]. There has been increased numbers of unidentified specimens in our collection which limits their use in future studies involving the biogeography. The most commonly occurring polychaete species are shown in the Fig. 1. A total 54 polychaete species were newly sequenced based on the 18S rDNA gene together with 88 sequences submitted to NCBI GenBank (Table 1) including Paraprionospio cristata Zhou, Yokoyama and Li, 2008, and Paraprionospio patiens Yokoyama, 2007. They are most dominant and opportunistic species along the study area.

Fig. 1

Commonly occurring polychaete species-A: Lysidice sp., B: Eteone heteropoda, C: Haplosyllis sp., D: Thormora sp., E: Sternapsis suctata, F: G: Perinereis cultrifera, H: Lumbrineris funchalensis, I: Pareurythoe borealis, J: Ceratonereis japonica, K-L: Scolelepis sp., M: Pomatoceros triqueter, N: Parasabella saxicola, O: Magelona cincta, P: Pomatostegus actinoceros, Q: Euclymene sp., R: Terebella sp., S: Paraprionospio cordifolia, T: Spiochaetopterus sp.

Table 1

NCBI Accession number for benthic polychaetes species along the west coast of India.

Specimen voucher	Morphological ID	NCBI Accession number
GP0161–GP0163	Eurythoe complanata	KT900265–KT900267
GP0164	Notopygoscaribea	KT900268
GP0165	Eurythoe complanata	KT900269
GP0166	Pareurythoe borealis	KT900270
GP0167–GP0168	Thormora sp.	KT900271–KT900272
GP0169–GP0170	Chloeiaviridis	KT900273–KT900274
GP0171–GP0173	Eurytho ecomplanata	KT900275–KT900277
GP0174	Hermenia verruculosa	KT900278
GP0175	Chloeia viridis	KT900279
GP0176–GP0177	Notopygos ornate	KT900280–KT900281
GP0178	Haplosyllis sp.	KT900282
GP0179	Pseudonereis sp.	KT900283
GP0180	Perinereis cultrifera	KT900284
GP0181–GP0182	Platynereis dumerlii	KT900285–KT900286
GP0183	Namalycastis abiuma	KT900287
GP0184	Dendronereis aestuarina	KT900288
GP0185	Namalycastis abiuma	KT900289
GP0186	Platynereis australis	KT900290
GP0187	Nereis sandersi	KT900291
GP0188	Glycera capitata	KT900292
GP0189	Glycera alba	KT900293
GP0190	Eunice miurai	KT900294
GP0191–GP0192	Lysidice sp.	KT900295–KT900296
GP0193	Lumbrineris funchalensis	KT900297
GP0194	Marphysa viridis	KT900298
GP0195	Ninoe nigripes	KT900299
GP0196–GP0197	Marphysa sp.	KT900300–KT900301
GP0198	Diopatra sp.	KT900302
GP0199	Eunice miurai	KT900303
GP0200–GP0202	Paraprionospio cordifolia	KT900304–KT900306
GP0203–GP0204	Paraprionospio patians	KT900307–KT900308
GP0205	Paraprionospio cordifolia	KT900309
GP0206–GP0207	Scolelepis sp.	KT900310–KT900311
GP0208	Magelona cincta	KT900312
GP0209–GP0212	Neosabellaria indica	KT900313–KT900316
GP0213–GP0214	Sabellaria chandraae	KT900317–KT900318
GP0215	Sabellaria intoshi	KT900319
GP0216–GP0217	Terebella sp.	KT900320–KT900321
GP0218	Paraeupolymniauspiana	KT900322
GP0219–GP0220	Parasabella saxicola	KT900323–KT900324
GP0221	Hydroides sanctaecrucis	KT900325
GP0222	Chitinopomaserrula	KT900326
GP0223	Pomatoceros triqueter	KT900327
GP0224	Spirobranchuslatiscapus	KT900328
GP0225	Thormora sp.	KX290696
GP0226–GP0227	Bhawaniacryptocephala	KX290697–KX290698
GP0228–GP0229	Perinereis sp.	KX290699–KX290700
GP0230	Nectoneanthes oxypoda	KX290701
GP0231–GP0232	Hermeniave rruculosa	KX290702–KX290703
GP0233	Hedisteatoka	KX290704
GP0234–GP0235	Terebellides sp.	KX290705–KX290706
GP0236–GP0237	Paralacydonia paradoxa	KX290707–KX290708
GP0238	Hesione sp.	KX290709
GP0239–GP0240	Spiochaetopterus sp.	KX290710–KX290711
GP0241	Euclymene sp.	KX290712

Experimental design, materials and methods

The sediment samples were collected at the following localities. Sediment samples were collected using 0.04 m² van Veen grabs. Samples were sieved on a 500 µm mesh. In the laboratory, the sediment samples were washed again, sorted, and stored in 95% ethanol. Some of middle segments of polychaete species were removed from these specimens and kept in vials containing absolute ethanol until further use for DNA isolation. Identification of polychaete species was done by observing diagnostic characters parapodia-bearing chitinous chaetae under stereo zoom microscope using keys [4], [5].

DNA extraction, PCR amplification, purification, and sequencing

Genomic DNA was extracted from the specimen using the Qiagen DNeasy Tissue Kit according to manufacturer׳s instructions. The 18S rRNA gene amplifications were carried out using primer pair 18F/18R1843 [6]. PCR amplification of the 18S rDNA gene changed into done in overlapping fragments of ~1800 bp length each with modified primer pairs with standard cycle sequencing protocols. Amplifications had been carried out using an Eppendorf Master Cycler Gradient. The following PCR temperature file was used: 95 C for 3 min; 35 cycles at 95 °C for 45 s, 60 °C for 1 min, and 72 C for 2 min; final extension at 72 C for 5 min. After detection by gel electrophoresis, the products had been purified using the Qiaquick PCR Purification Kit (Qiagen). Sequences were produced using the same primers and determined on an Applied Biosystems (ABI) 3730xl. All sequences were submitted to NCBI GenBank (Table 1).

Subject area	Marine biology
More specific subject area	Molecular biology, Benthic polychaetes
Type of data	Figures, Table
How data was acquired	Applied biosystems (ABI) 3730xl DNA sequencer
Data format analysed	Raw data (Fasta)
Experimental factor	Benthic polychaetes species
Experimental features	Datasets for body of tissues
Data source location	West coast of India
Data accessibility	Data is with this article and available online at https://www.ncbi.nlm.nih.gov/nuccore/KX525515